tajima.K

Calculates Tajima's K index of divergence.

utilities

Analysis of species limits and DNA barcoding data. Included are functions for generating important summary statistics from DNA barcode data, assessing specimen identification efficacy, testing and optimizing divergence threshold limits, assessment of diagnostic nucleotides, and calculation of the probability of reciprocal monophyly. Additionally, a sliding window function offers opportunities to analyse information across a gene, often used for marker design in degraded DNA studies. Further information on the package has been published in Brown et al (2012) <doi:10.1111/j.1755-0998.2011.03108.x>.

Rupert Collins

spider

Species Identity and Evolution in R

Samuel Brown

Stephane Boyer

Marie-Caroline Lefort

Jagoba Malumbres-Olarte

Cor Vink

Rob Cruickshank

tajima.K function

<dl><dt>DNAbin</dt>
<dd>An object of class `DNAbin'.</dd>
<dt>prop</dt>
<dd>Logical. Should the function report the number of substitutions
per nucleotide? Default of TRUE.</dd></dl>

Arguments

Samuel Brown &lt;s_d_j_brown@hotmail.com&gt;

Author

Calculate Tajima's K index of divergence — tajima.K

<dl>

<dt>DNAbin</dt>
<dd>An object of class `DNAbin'.</dd>


<dt>prop</dt>
<dd>Logical. Should the function report the number of substitutions
per nucleotide? Default of TRUE.</dd>

</dl>

tajima.K: Calculate Tajima's K index of divergence

Description

Usage

Value

Arguments

Author

References

See Also

Examples